README.md
In FelixErnst/RNAmodR.RiboMethSeq: Detection of 2'-O methylations by RiboMethSeq

RNAmodR.RiboMethSeq

RNAmodR.RiboMethSeq uses classes and workflows from RNAmodR to detect 2'-O methylations from RiboMethSeq data.

The vignette from the RNAmodR.RiboMethSeq package provides details on the specific analysis of RiboMethSeq data. Have a look at the vignette from the RNAmodR package for a general description on the provided workflows.

Installation

The current version of the RNAmodR.RiboMethSeq package is available from Bioconductor.

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install("RNAmodR.RiboMethSeq")
library(RNAmodR.RiboMethSeq)

Literature

Birkedal U, Christensen-Dalsgaard M, Krogh N, Sabarinathan R, Gorodkin J, Nielsen H (2015): "Profiling of ribose methylations in RNA by high-throughput sequencing." Angewandte Chemie (International ed. in English) 54 (2), P. 451–455. DOI: 10.1002/anie.201408362.
Marchand V, Ayadi L, El Hajj A, Blanloeil-Oillo F, Helm M, Motorin Y (2017): "High-Throughput Mapping of 2'-O-Me Residues in RNA Using Next-Generation Sequencing (Illumina RiboMethSeq Protocol)." Methods in molecular biology (Clifton, N.J.) 1562, P. 171–187. DOI: 10.1007/978-1-4939-6807-7_12.
Galvanin A, Ayadi L, Helm M, Motorin Y, Marchand V (2017): "Mapping and Quantification of tRNA 2'-O-Methylation by RiboMethSeq". Wajapeyee N., Gupta R. (eds) Epitranscriptomics. Methods in Molecular Biology (Humana Press, New York, NY) 1870, P. 273-295. DOI: 10.1007/978-1-4939-8808-2_21.